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release/v1.2.5: updating version numbers
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‎cmdstanpy/_version.py‎

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"""PyPi Version"""
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__version__ = '1.2.4'
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__version__ = '1.2.5'

‎docs/_modules/cmdstanpy/cmdstan_args.html‎

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<title>cmdstanpy.cmdstan_args &#8212; CmdStanPy 1.2.4 documentation</title>
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<title>cmdstanpy.cmdstan_args &#8212; CmdStanPy 1.2.5 documentation</title>
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<a class='navbar-brand' href='../../index.html'>CmdStanPy 1.2.4</a>
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‎docs/_modules/cmdstanpy/compilation.html‎

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<title>cmdstanpy.compilation &#8212; CmdStanPy 1.2.4 documentation</title>
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‎docs/_modules/cmdstanpy/install_cmdstan.html‎

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<title>cmdstanpy.install_cmdstan &#8212; CmdStanPy 1.2.4 documentation</title>
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<title>cmdstanpy.install_cmdstan &#8212; CmdStanPy 1.2.5 documentation</title>
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‎docs/_modules/cmdstanpy/model.html‎

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<title>cmdstanpy.model &#8212; CmdStanPy 1.2.4 documentation</title>
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<title>cmdstanpy.model &#8212; CmdStanPy 1.2.5 documentation</title>
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@@ -379,9 +379,9 @@ <h1>Source code for cmdstanpy.model</h1><div class="highlight"><pre>
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<span class="bp">self</span><span class="o">.</span><span class="n">_compiler_options</span><span class="o">.</span><span class="n">add_include_path</span><span class="p">(</span><span class="n">path</span><span class="p">)</span>
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<span class="c1"># try to detect models w/out parameters, needed for sampler</span>
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<span class="k">if</span> <span class="ow">not</span> <span class="n">cmdstan_version_before</span><span class="p">(</span>
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<span class="mi">2</span><span class="p">,</span> <span class="mi">27</span>
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<span class="p">):</span> <span class="c1"># unknown end of version range</span>
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<span class="k">if</span> <span class="p">(</span><span class="ow">not</span> <span class="n">cmdstan_version_before</span><span class="p">(</span><span class="mi">2</span><span class="p">,</span> <span class="mi">27</span><span class="p">))</span> <span class="ow">and</span> <span class="n">cmdstan_version_before</span><span class="p">(</span>
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<span class="mi">2</span><span class="p">,</span> <span class="mi">36</span>
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<span class="p">):</span>
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<span class="k">try</span><span class="p">:</span>
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<span class="n">model_info</span> <span class="o">=</span> <span class="bp">self</span><span class="o">.</span><span class="n">src_info</span><span class="p">()</span>
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<span class="k">if</span> <span class="s1">&#39;parameters&#39;</span> <span class="ow">in</span> <span class="n">model_info</span><span class="p">:</span>

‎docs/_modules/cmdstanpy/stanfit.html‎

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‎docs/_modules/cmdstanpy/stanfit/gq.html‎

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<title>cmdstanpy.stanfit.gq &#8212; CmdStanPy 1.2.4 documentation</title>
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‎docs/_modules/cmdstanpy/stanfit/laplace.html‎

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‎docs/_modules/cmdstanpy/stanfit/mcmc.html‎

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@@ -586,7 +586,7 @@ <h1>Source code for cmdstanpy.stanfit.mcmc</h1><div class="highlight"><pre>
586586
<span class="bp">self</span><span class="o">.</span><span class="n">_step_size</span><span class="p">[</span><span class="n">chain</span><span class="p">]</span> <span class="o">=</span> <span class="nb">float</span><span class="p">(</span><span class="n">step_size</span><span class="o">.</span><span class="n">strip</span><span class="p">())</span>
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<span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">_metadata</span><span class="o">.</span><span class="n">cmdstan_config</span><span class="p">[</span><span class="s1">&#39;metric&#39;</span><span class="p">]</span> <span class="o">!=</span> <span class="s1">&#39;unit_e&#39;</span><span class="p">:</span>
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<span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span> <span class="c1"># metric type</span>
589-
<span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39; #</span><span class="se">\t</span><span class="s1">&#39;</span><span class="p">)</span>
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<span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39; #</span><span class="se">\t</span><span class="s1">&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
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<span class="n">num_unconstrained_params</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">))</span>
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<span class="k">if</span> <span class="n">chain</span> <span class="o">==</span> <span class="mi">0</span><span class="p">:</span> <span class="c1"># can&#39;t allocate w/o num params</span>
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@@ -603,18 +603,21 @@ <h1>Source code for cmdstanpy.stanfit.mcmc</h1><div class="highlight"><pre>
603603
<span class="p">),</span>
604604
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605605
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<span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">metric_type</span> <span class="o">==</span> <span class="s1">&#39;diag_e&#39;</span><span class="p">:</span>
607-
<span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
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<span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span><span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span><span class="p">]</span>
609-
<span class="k">else</span><span class="p">:</span>
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<span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
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<span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span><span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span><span class="p">]</span>
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<span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">num_unconstrained_params</span><span class="p">):</span>
613-
<span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39; #</span><span class="se">\t</span><span class="s1">&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>
606+
<span class="k">if</span> <span class="n">line</span><span class="p">:</span>
607+
<span class="k">if</span> <span class="bp">self</span><span class="o">.</span><span class="n">metric_type</span> <span class="o">==</span> <span class="s1">&#39;diag_e&#39;</span><span class="p">:</span>
614608
<span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
615-
<span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span>
609+
<span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span><span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span><span class="p">]</span>
610+
<span class="k">else</span><span class="p">:</span>
611+
<span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
612+
<span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="mi">0</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span>
616613
<span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span>
617614
<span class="p">]</span>
615+
<span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="mi">1</span><span class="p">,</span> <span class="n">num_unconstrained_params</span><span class="p">):</span>
616+
<span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">lstrip</span><span class="p">(</span><span class="s1">&#39; #</span><span class="se">\t</span><span class="s1">&#39;</span><span class="p">)</span><span class="o">.</span><span class="n">rstrip</span><span class="p">()</span>
617+
<span class="n">xs</span> <span class="o">=</span> <span class="n">line</span><span class="o">.</span><span class="n">split</span><span class="p">(</span><span class="s1">&#39;,&#39;</span><span class="p">)</span>
618+
<span class="bp">self</span><span class="o">.</span><span class="n">_metric</span><span class="p">[</span><span class="n">chain</span><span class="p">,</span> <span class="n">i</span><span class="p">,</span> <span class="p">:]</span> <span class="o">=</span> <span class="p">[</span>
619+
<span class="nb">float</span><span class="p">(</span><span class="n">x</span><span class="p">)</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">xs</span>
620+
<span class="p">]</span>
618621
<span class="k">else</span><span class="p">:</span> <span class="c1"># unit_e changed in 2.34 to have an extra line</span>
619622
<span class="n">pos</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">tell</span><span class="p">()</span>
620623
<span class="n">line</span> <span class="o">=</span> <span class="n">fd</span><span class="o">.</span><span class="n">readline</span><span class="p">()</span><span class="o">.</span><span class="n">strip</span><span class="p">()</span>

‎docs/_modules/cmdstanpy/stanfit/metadata.html‎

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